Been kayaking a long time, I would not recommend hip boots. In a kayak, you should always be prepared for a swim, hip boots (and old rubber boot foot waders) are nearly impossible to swim in. Especially in a deeper river or lake. Now if you just want something to keep your feet dry in these shoulder months while boarding the kayak, in shallow water, then hippers are fine.
Stockingfoot waders (especially the "tight" fitting breathable kind) will work pretty good. Neoprene tends to get too hot when paddling (sweat) then you get real cold when sitting to fish. Lots of layers of quick drying (wicking synthetics) works well with the waders.
Kayak specific splash pants and tops work well and offer the most range of motion (and better longevity). The ultimate in winter wear is a drysuit, but they are costly.
Also always keep a change of warm and dry clothes with you (in a dry bag). I even sometimes go as far as keep a third set in the vehicle.
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